From 8f35dd82cb8882327fafed22a6fca991e24fd9cf Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Thu, 17 Mar 2016 16:31:53 +0100
Subject: [PATCH] Fixed tests
---
.../src/test/resources/flagstat_crossreport.txt | 16 ----------------
.../src/test/resources/flagstat_crosstrue.txt | 16 ----------------
.../src/test/resources/flagstat_report.txt | 16 ----------------
.../src/test/resources/flagstat_summary.txt | 16 ----------------
4 files changed, 64 deletions(-)
diff --git a/public/biopet-tools/src/test/resources/flagstat_crossreport.txt b/public/biopet-tools/src/test/resources/flagstat_crossreport.txt
index 38f4c9264..74eabb412 100644
--- a/public/biopet-tools/src/test/resources/flagstat_crossreport.txt
+++ b/public/biopet-tools/src/test/resources/flagstat_crossreport.txt
@@ -1,19 +1,3 @@
-====
- Biopet is built on top of GATK Queue for building bioinformatic
- pipelines. It is mainly intended to support LUMC SHARK cluster which is running
- SGE. But other types of HPC that are supported by GATK Queue (such as PBS)
- should also be able to execute Biopet tools and pipelines.
-
- Copyright 2014 Sequencing Analysis Support Core - Leiden University Medical Center
-
- Contact us at: sasc@lumc.nl
-
- A dual licensing mode is applied. The source code within this project that are
- not part of GATK Queue is freely available for non-commercial use under an AGPL
- license; For commercial users or users who do not want to follow the AGPL
- license, please contact us to obtain a separate license.
-====
-
#1 #2 #3 #4 #5 #6 #7 #8 #9 #10 #11 #12 #13 #14
#1 1 1 0 1 0 0 0 1 1 1 0 0 0 0
#2 1 1 0 1 0 0 0 1 1 1 0 0 0 0
diff --git a/public/biopet-tools/src/test/resources/flagstat_crosstrue.txt b/public/biopet-tools/src/test/resources/flagstat_crosstrue.txt
index 3a5ac5d9b..dd05aed41 100644
--- a/public/biopet-tools/src/test/resources/flagstat_crosstrue.txt
+++ b/public/biopet-tools/src/test/resources/flagstat_crosstrue.txt
@@ -1,19 +1,3 @@
-====
- Biopet is built on top of GATK Queue for building bioinformatic
- pipelines. It is mainly intended to support LUMC SHARK cluster which is running
- SGE. But other types of HPC that are supported by GATK Queue (such as PBS)
- should also be able to execute Biopet tools and pipelines.
-
- Copyright 2014 Sequencing Analysis Support Core - Leiden University Medical Center
-
- Contact us at: sasc@lumc.nl
-
- A dual licensing mode is applied. The source code within this project that are
- not part of GATK Queue is freely available for non-commercial use under an AGPL
- license; For commercial users or users who do not want to follow the AGPL
- license, please contact us to obtain a separate license.
-====
-
#1 #2 #3 #4 #5 #6 #7 #8 #9 #10 #11 #12 #13 #14
#1 100.0000% 100.0000% 0.0000% 100.0000% 0.0000% 0.0000% 0.0000% 100.0000% 100.0000% 100.0000% 0.0000% 0.0000% 0.0000% 0.0000%
#2 100.0000% 100.0000% 0.0000% 100.0000% 0.0000% 0.0000% 0.0000% 100.0000% 100.0000% 100.0000% 0.0000% 0.0000% 0.0000% 0.0000%
diff --git a/public/biopet-tools/src/test/resources/flagstat_report.txt b/public/biopet-tools/src/test/resources/flagstat_report.txt
index 6c536798b..acbe332a8 100644
--- a/public/biopet-tools/src/test/resources/flagstat_report.txt
+++ b/public/biopet-tools/src/test/resources/flagstat_report.txt
@@ -1,19 +1,3 @@
-====
- Biopet is built on top of GATK Queue for building bioinformatic
- pipelines. It is mainly intended to support LUMC SHARK cluster which is running
- SGE. But other types of HPC that are supported by GATK Queue (such as PBS)
- should also be able to execute Biopet tools and pipelines.
-
- Copyright 2014 Sequencing Analysis Support Core - Leiden University Medical Center
-
- Contact us at: sasc@lumc.nl
-
- A dual licensing mode is applied. The source code within this project that are
- not part of GATK Queue is freely available for non-commercial use under an AGPL
- license; For commercial users or users who do not want to follow the AGPL
- license, please contact us to obtain a separate license.
-====
-
Number Total Flags Fraction Name
#1 1 100.0000% All
#2 1 100.0000% Mapped
diff --git a/public/biopet-tools/src/test/resources/flagstat_summary.txt b/public/biopet-tools/src/test/resources/flagstat_summary.txt
index fcb037817..e7984915c 100644
--- a/public/biopet-tools/src/test/resources/flagstat_summary.txt
+++ b/public/biopet-tools/src/test/resources/flagstat_summary.txt
@@ -1,19 +1,3 @@
-====
- Biopet is built on top of GATK Queue for building bioinformatic
- pipelines. It is mainly intended to support LUMC SHARK cluster which is running
- SGE. But other types of HPC that are supported by GATK Queue (such as PBS)
- should also be able to execute Biopet tools and pipelines.
-
- Copyright 2014 Sequencing Analysis Support Core - Leiden University Medical Center
-
- Contact us at: sasc@lumc.nl
-
- A dual licensing mode is applied. The source code within this project that are
- not part of GATK Queue is freely available for non-commercial use under an AGPL
- license; For commercial users or users who do not want to follow the AGPL
- license, please contact us to obtain a separate license.
-====
-
{
"Duplicates" : 0,
"NotPrimaryAlignment" : 0,
--
GitLab